Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 334,604 A→T 7.2% L28M (TTG→ATG)  PP_0276 ← Cro/CI family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_002947334,6040AT 7.2% 163.6 / 2.2 55L28M (TTG→ATG) PP_0276Cro/CI family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (32/19);  new base T (2/2);  total (34/21)
Fisher's exact test for biased strand distribution p-value = 6.32e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.31e-01

GTCCATCATGGCGTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGATTGGTTGGCGAGTCA  >  NC_002947/334461‑334751
                                                                                                                                               |                                                                                                                                                   
gTCCATCATGGCGTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCa                                                                                                                                                >  4:22230/1‑149 (MQ=255)
    atcatGGCGTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGt                                                                                                                                                   <  1:145942/142‑1 (MQ=255)
      gatGGCGTCCCAGGTAACTTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACTTGTCCATTTTCa                                                                                                                                          <  1:316297/148‑1 (MQ=255)
       atGGCGTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAATCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGTAAATGGACAAGTCCATTTTCaa                                                                                                                                         <  7:56052/149‑1 (MQ=255)
        tGGCGTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAg                                                                                                                                        >  2:273940/1‑149 (MQ=255)
            gTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCa                                                                                                                                    >  2:167402/1‑149 (MQ=255)
                  ggTGAATTTCTCGATCTTTCCATTTGCAAGCTCGTATATGCGGGATTGTGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACTTGTCCATTTTCat                                                                                                                                         <  2:245117/138‑2 (MQ=255)
                  ggTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGAAATGCGGGATTGGGTTACGTTCAGCTTGGATGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACTTGTCCATTTTCat                                                                                                                                         >  1:245117/1‑137 (MQ=255)
                      aaTTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTgg                                                                                                                           <  4:225576/148‑1 (MQ=255)
                       aTTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCg                                                                                                                         <  6:150393/149‑1 (MQ=255)
                           ctcGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTa                                                                                                                      >  5:189996/1‑148 (MQ=255)
                              gATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCt                                                                                                                   <  3:22230/148‑1 (MQ=255)
                                    gCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGcgt                                                                                                               <  5:24050/146‑1 (MQ=255)
                                      cATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCgtgg                                                                                                          >  4:79949/1‑149 (MQ=255)
                                       aTTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGt                                                                                                                                                   <  8:142933/107‑1 (MQ=255)
                                       aTTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGt                                                                                                                                                   >  7:142933/1‑107 (MQ=255)
                                                 tCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGa                                                                                                >  2:364860/1‑148 (MQ=255)
                                                           gggATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAggg                                                                                           <  8:288871/143‑1 (MQ=255)
                                                           gggATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAggg                                                                                           >  7:288871/1‑143 (MQ=255)
                                                           gggATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCGGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCg                                                                                     <  8:266474/149‑1 (MQ=255)
                                                             gATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTg                                                                                   <  1:167402/149‑1 (MQ=255)
                                                             gATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTg                                                                                   >  3:256081/1‑149 (MQ=255)
                                                              aTTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTg                                                                                   >  8:276268/1‑148 (MQ=255)
                                                                      aCGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTTGCGTGGAAAGGGCTTTCGTGGAATTGAAg                                                                          >  2:60725/1‑149 (MQ=255)
                                                                      aCGTTCAGCTTGGCTGCGGCATCATGCTGGTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGaa                                                                           <  6:64740/148‑1 (MQ=255)
                                                                                    tGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGc                                                            >  7:109680/1‑149 (MQ=255)
                                                                                             atGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGATTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAg                                                    >  8:327388/1‑148 (MQ=255)
                                                                                              tGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGa                                                   >  8:336175/1‑148 (MQ=255)
                                                                                              tGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGa                                                   >  1:234314/1‑148 (MQ=255)
                                                                                               gCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGaaa                                                 >  1:157285/1‑149 (MQ=255)
                                                                                                   tttGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAatat                                              <  7:276268/148‑1 (MQ=255)
                                                                                                   tttGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAatat                                              <  8:109680/148‑1 (MQ=255)
                                                                                                        ggCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTaaaa                                        <  7:336175/149‑1 (MQ=255)
                                                                                                        ggCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTAGGCAGAAATATCTaaaa                                        >  2:133634/1‑149 (MQ=255)
                                                                                                         gCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAAt                                       >  6:249710/1‑149 (MQ=255)
                                                                                                           ccATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAAttt                                     >  2:27434/1‑149 (MQ=255)
                                                                                                           ccATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAAttt                                     >  5:376984/1‑149 (MQ=255)
                                                                                                            cATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTg                                    >  5:301538/1‑149 (MQ=255)
                                                                                                            cATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTg                                    >  2:323898/1‑149 (MQ=255)
                                                                                                            cATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTg                                    >  5:106984/1‑149 (MQ=255)
                                                                                                            cATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTAGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTg                                    >  5:43815/1‑149 (MQ=255)
                                                                                                             aTTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGc                                   <  3:79949/149‑1 (MQ=255)
                                                                                                             aTTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGc                                   >  3:134723/1‑149 (MQ=255)
                                                                                                                 ttttGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGAt                                >  3:351085/1‑148 (MQ=255)
                                                                                                                  tttGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTaaaa                                        >  1:145421/1‑139 (MQ=255)
                                                                                                                          agtcagtGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAgt                      <  2:157285/149‑1 (MQ=255)
                                                                                                                               gtGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGa                 >  3:4037/1‑149 (MQ=255)
                                                                                                                                 cttgaAAATGGACTTGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGAtt               >  3:99261/3‑149 (MQ=255)
                                                                                                                                  atgaAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGAttg              >  4:274566/1‑149 (MQ=255)
                                                                                                                                     aaaaTGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGATTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGAttggt            <  7:327388/148‑1 (MQ=255)
                                                                                                                                     aaaaTGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCGGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGAttggtt           >  1:76347/1‑149 (MQ=255)
                                                                                                                                      aaaTGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGAttggtt           <  2:234314/148‑1 (MQ=255)
                                                                                                                                       aaTGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGAttggttgg         >  4:150804/1‑149 (MQ=255)
                                                                                                                                            aCAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGATTGGTTGGCGAGt    >  6:144096/1‑149 (MQ=255)
                                                                                                                                            aCAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGGGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGATTGGTTGGCGAGt    <  6:189996/149‑1 (MQ=255)
                                                                                                                                              aaGTCCATTTTCAAGGCCATTTTGCTGGAGGTATCTGCGTCGTGGGTTGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGATTGGTTGGCGAGTCa  <  2:29320/149‑1 (MQ=255)
                                                                                                                                               |                                                                                                                                                   
GTCCATCATGGCGTCCAAGGTGAATTTCTCGATCTTGCCATTTGCAAGCTCGGATATGCGGGATTGGGTTACGTTCAGCTTGGCTGCGGCATCATGCTGTTTGAGGCCCATTTTTTTGATGCAGTCAGTGATGAAAATGGACAAGTCCATTTTCAAGGCCATTTTGCTGGCGGTATCTGCGTCGTGGGTGGCGTGGAAAGGGCTTTCGTGGAATTGAAGCGCCATCGGCTTGCCTCGGCAGAAATATCTAAAATTTGCGATAAATCGTAGTGTGGATTGGTTGGCGAGTCA  >  NC_002947/334461‑334751

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑